Structural phylogeny by profile extraction and multiple superimposition using electrostatic congruence as a discriminator.

ABSTRACT: Phylogenetic analysis of proteins using multiple sequence alignment (MSA) assumes an underlying evolutionary relationship in these proteins which occasionally remains undetected due to considerable sequence divergence. Structural alignment programs have been developed to unravel such fuzzy relationships. However, none of these structure based methods have used electrostatic properties to discriminate between spatially equivalent residues. We present a methodology for MSA of a set of related proteins with known structures using electrostatic properties as an additional discriminator (STEEP). STEEP first extracts a profile, then generates a multiple structural superimposition providing a consolidated spatial framework for comparing residues and finally emits the MSA. Residues that are aligne

SUBMITTER: Chakraborty S 

PROVIDER: S-EPMC4212511 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature